View Single Post
Old 04-06-2011, 04:18 AM   #2
tir_al
Member
 
Location: Croatia

Join Date: Sep 2010
Posts: 22
Default

Have you tried looking at the duplication rate of your libraries? Although the distributions might look the same in the browser, the high duplication rate in one sample can really mess up the peak calling.

You can check the duplication rates very easily using the excellent FastQC app.
tir_al is offline   Reply With Quote